16S rRNA gene in the salmo trutta fario and Salmo trutta caspius has been polymerized, characterized and compared with within and between of salmonids species. The full lengths of 16S rRNA gene in species of salmons were sequenced approximately 1.7 kb and deposited in GenBank. We designed one pair of primer for amplification of 16S rRNA gene in species of s.t.caspius and s. t. fario. In present study, DNA extracted from muscles of s. t. fario and s.t.caspius for amplification of the 16S rRNA gene. After running PCR on the gel, against the PCR product had taken photo by Gel DOC. The results are shown there was high homology between solmonids, because we got PCR product around 1700bp equal of full length of 16S rRNA gene that reported in GenBank. However, the homology of PCR products were very high, but the shape of s. t. fario with s.t.caspius is different, s.t.fario has red to purple color dots on the skin but regards salmo salar and s.t. caspius have grey to black dots colors on the skin.